5X06

DNA replication regulation protein


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.237 Å
  • R-Value Free: 0.265 
  • R-Value Work: 0.226 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Replication regulation protein

Kim, J.Cho, Y.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
DNA polymerase III subunit beta
A, B, C, D
386Escherichia coli O157:H7Mutation(s): 0 
Gene Names: dnaN
Find proteins for P0A990 (Escherichia coli O157:H7)
Go to UniProtKB:  P0A990
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
DnaA regulatory inactivator Hda
E, F, G, H
253Escherichia coli O157:H7Mutation(s): 0 
Gene Names: hda
Find proteins for P69933 (Escherichia coli O157:H7)
Go to UniProtKB:  P69933
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ADP
Query on ADP

Download SDF File 
Download CCD File 
E, F, G, H
ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
 Ligand Interaction
GOL
Query on GOL

Download SDF File 
Download CCD File 
C, D, E, G
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
MG
Query on MG

Download SDF File 
Download CCD File 
E, F, G, H
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.237 Å
  • R-Value Free: 0.265 
  • R-Value Work: 0.226 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 102.112α = 90.00
b = 149.542β = 90.00
c = 200.780γ = 90.00
Software Package:
Software NamePurpose
PHENIXphasing
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data

  • Deposited Date: 2017-01-20 
  • Released Date: 2018-01-24 
  • Deposition Author(s): Kim, J., Cho, Y.

Funding OrganizationLocationGrant Number
National Research Foundation of Korea funded by the Korea GovernmentKorea, Republic OfNRF-2015R1A2A1A05001694
National Research Foundation of Korea funded by the Korea GovernmentKorea, Republic Of2012054226
National Research Foundation of Korea funded by the Korea GovernmentKorea, Republic Of20120008833

Revision History 

  • Version 1.0: 2018-01-24
    Type: Initial release